The Protein Mutant Database. - Takeshi Kawabata; Motonori Ota; Ken Nishikawa (Nucleic Acids Res., 1999)

DNA Data Bank of Japan (DDBJ) in collaboration with mass sequencing teams. - Yoshio Tateno; Satoru Miyazaki; Motonori Ota; Hideaki Sugawara; Takashi Gojobori (Nucleic Acids Res., 2000)

GTOP: a database of protein structures predicted from genome sequences. - Takeshi Kawabata; Satoshi Fukuchi; Keiichi Homma; Motonori Ota; Jiro Araki; Takehiko Ito; Nobuyuki Ichiyoshi; Ken Nishikawa (Nucleic Acids Res., 2002)

P-cats: prediction of catalytic residues in proteins from their tertiary structures. - Kengo Kinoshita; Motonori Ota (Bioinform., 2005)

An enhanced partial order curve comparison algorithm and its application to analyzing protein folding trajectories. - Hong Sun; Hakan Ferhatosmanoglu; Motonori Ota; Yusu Wang 001 (BMC Bioinform., 2008)

An evaluation of minimal cellular functions to sustain a bacterial cell. - Yusuke Azuma; Motonori Ota (BMC Syst. Biol., 2009)

SAHG, a comprehensive database of predicted structures of all human proteins. - Chie Motono; Junichi Nakata; Ryotaro Koike; Kana Shimizu; Matsuyuki Shirota; Takayuki Amemiya; Kentaro Tomii; Nozomi Nagano; Naofumi Sakaya; Kiyotaka Misoo; Miwa Sato; Akinori Kidera; et al. (Nucleic Acids Res., 2011)

SCPC: a method to structurally compare protein complexes. - Ryotaro Koike; Motonori Ota (Bioinform., 2012)

PSCDB: a database for protein structural change upon ligand binding. - Takayuki Amemiya; Ryotaro Koike; Akinori Kidera; Motonori Ota (Nucleic Acids Res., 2012)

IDEAL: Intrinsically Disordered proteins with Extensive Annotations and Literature. - Satoshi Fukuchi; Shigetaka Sakamoto; Yukiko Nobe; Seiko D. Murakami; Takayuki Amemiya; Kazuo Hosoda; Ryotaro Koike; Hidekazu Hiroaki; Motonori Ota (Nucleic Acids Res., 2012)

IDEAL in 2014 illustrates interaction networks composed of intrinsically disordered proteins and their binding partners. - Satoshi Fukuchi; Takayuki Amemiya; Shigetaka Sakamoto; Yukiko Nobe; Kazuo Hosoda; Yumiko Kado; Seiko D. Murakami; Ryotaro Koike; Hidekazu Hiroaki; Motonori Ota (Nucleic Acids Res., 2014)

Profile comparison revealed deviation from structural constraint at the positively selected sites. - Hiroyuki Oda; Motonori Ota; Hiroyuki Toh (Biosyst., 2016)

MICAN-SQ: a sequential protein structure alignment program that is applicable to monomers and all types of oligomers. - Shintaro Minami; Kengo Sawada; Motonori Ota; George Chikenji (Bioinform., 2018)

Workshop on Patient Similitude: Combining Histopathological Images & Multiple-Scale Molecular Phenotypes (NII Shonan Meeting 2018-17). - Raghu Machiraju; Jens Rittscher; Motonori Ota (NII Shonan Meet. Rep., 2018)

Semantic Integration of Intrinsically Disordered Proteins and Existing DBs. - Atsuko Yamaguchi; Hideki Hatanaka; Satoshi Fukuchi; Motonori Ota (SWAT4HCLS, 2019)

A semantic design for the biological processes associated with intrinsically disordered proteins. - Atsuko Yamaguchi; Yumiko Kado; Shigetaka Sakamoto; Satoshi Fukuchi; Motonori Ota (SWAT4HCLS, 2024)